# List of top-scoring protein chains for t2k-100-30-bys-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1mwwA 128 1.54e+00 d.80.1.4 91483 1xd3A 230 1.63e+00 1fjrA 195 1.74e+00 1fjrA b.102.1.1 59855 1gky 187 1.87e+00 1gky c.37.1.1 31839 1ex7A 186 2.51e+00 1gky c.37.1.1 59537 2b1xA 470 2.95e+00 1o0sA 605 3.45e+00 c.2.1.7,c.58.1.3 86540,86541 2b5oA 402 4.28e+00 1aokB 122 4.48e+00 1poa a.133.1.2 19561 1uch 230 4.71e+00 1uch d.3.1.6 37129 1y8oB 128 4.85e+00 1fu1B 203 6.51e+00 1fu1B b.59.1.1,h.1.11.1 27077,45631 1bb9 115 6.52e+00 1bb9 b.34.2.1 24554 1fu1A 203 6.76e+00 1fu1B b.59.1.1,h.1.11.1 27076,45630 1cjxA 357 6.81e+00 1cjxA d.32.1.3,d.32.1.3 38516,38517 2axyA 73 6.92e+00 1vk0A 206 7.11e+00 c.55.3.5 100839 1b65A 375 7.25e+00 1b65A d.154.1.1 42020 1fnb 314 7.53e+00 1fnc b.43.4.2,c.25.1.1 25628,31518 1fnc 314 7.90e+00 1fnc b.43.4.2,c.25.1.1 25627,31517 1ifrA 121 8.67e+00 b.1.16.1 71203 1ik9A 213 8.86e+00 b.59.1.1,h.1.11.1 66176,66177 1bx1A 314 8.91e+00 1fnc b.43.4.2,c.25.1.1 25629,31519 1que 303 9.02e+00 1fnc b.43.4.2,c.25.1.1 25647,31537 1w34A 304 9.34e+00 1qg0A 308 9.47e+00 1fnc b.43.4.2,c.25.1.1 25639,31529 1b2rA 304 9.54e+00 1fnc b.43.4.2,c.25.1.1 25648,31538 1soxA 466 9.63e+00 1soxA b.1.18.6,d.120.1.1,d.176.1.1 21947,41090,42563 1ocxA 182 9.63e+00 b.81.1.3 86814 2bsaA 303 9.84e+00 1jltB 122 1.00e+01 a.133.1.2 66868 1qh0A 295 1.00e+01 b.43.4.2,c.25.1.1 68891,68892 2b6nA 278 1.07e+01 1dy9A 187 1.11e+01 1jxpA b.47.1.3 26400 1fnd 314 1.16e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1dbdA 100 1.17e+01 2bopA d.58.8.1 39218 1d8iA 311 1.23e+01 1d8iA d.63.1.1 39541 1gw0A 559 1.29e+01 b.6.1.3,b.6.1.3,b.6.1.3 70623,70624,70625 1s31A 273 1.40e+01 1h59B 54 1.49e+01 g.3.9.1 70881 1go2A 304 1.55e+01 b.43.4.2,c.25.1.1 76243,76244 1d8hA 311 1.56e+01 1d8iA d.63.1.1 39544 1jjhA 86 1.60e+01 2bopA d.58.8.1 63119 1ogiA 303 1.63e+01 b.43.4.2,c.25.1.1 92914,92915 1e19A 314 1.93e+01 1b7bA c.73.1.1 34967 1pyaB 228 1.97e+01 1pyaB 2fmlA 273 1.98e+01 1eljA 381 2.12e+01 4mbp c.94.1.1 35791 1rtfB 252 2.13e+01 5ptp 1y43B 173 2.16e+01 1bawA 105 2.20e+01 1plc b.6.1.1 22868 1x9gA 200 2.35e+01 c.33.1.3 109527 2bopA 85 2.37e+01 2bopA d.58.8.1 39217 1a9y 338 2.37e+01 1xel c.2.1.2 29789 2agcA 162 2.47e+01 1aorA 605 2.49e+01 1b25A a.110.1.1,d.152.1.1 19042,41794 1dp4A 435 2.52e+01 1dp4A c.93.1.1 35710 1afsA 323 2.59e+01 1frb c.1.7.1 28694 1xel 338 2.63e+01 1xel c.2.1.2 29786 1xkzA 255 2.71e+01 1ncg 110 2.74e+01 1edhA b.1.6.1 22193 1kvs 338 2.76e+01 1xel c.2.1.2 29799 1w25A 459 2.78e+01 1xg8A 111 2.82e+01 1q41A 424 2.86e+01 d.144.1.7 95774 1ltqA 301 2.87e+01 c.108.1.9,c.37.1.1 78208,78209 1jhb 106 2.88e+01 1kte c.47.1.1 32772 1k0gA 453 2.92e+01 d.161.1.1 67940 2a9dA 372 2.96e+01 1udc 338 3.02e+01 1xel c.2.1.2 29785 2fp7B 172 3.05e+01 1dkzA 219 3.06e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1a1rA 198 3.07e+01 1jxpA b.47.1.3 26406 1awe 130 3.07e+01 1awe b.55.1.1 26968 1k1zA 78 3.15e+01 b.34.2.1 68026 1dkxA 219 3.16e+01 1dkzA a.8.4.1,b.130.1.1 90339,90340 1w2lA 99 3.18e+01 1btl 263 3.22e+01 1btl e.3.1.1 42691 1xl3C 92 3.22e+01 1j1bA 420 3.26e+01 d.144.1.7 90758 1kdj 102 3.27e+01 1plc b.6.1.1 22864 1c8zA 265 3.33e+01 1c8zA d.23.1.1 38375 1udb 338 3.44e+01 1xel c.2.1.2 29787 1ymzA 43 3.47e+01 1gcqC 70 3.48e+01 1gcpA b.34.2.1 60436 1rlw 126 3.51e+01 1rlw b.7.1.1 23177 1binB 143 3.53e+01 2gdm a.1.1.2 15232 1mwmA 320 3.53e+01 c.55.1.1,c.55.1.1 79580,79581 2f1rA 171 3.61e+01 1kte 105 3.61e+01 1kte c.47.1.1 32771 1g8aA 227 3.65e+01 c.66.1.3 90506 1xa1A 255 3.75e+01 e.3.1.1 109529 2blcA 238 3.78e+01 1fuiA 591 3.79e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1sesA 421 3.82e+01 1sesA a.2.7.1,d.104.1.1 15710,40710 1yn4A 99 3.83e+01 1ordA 730 3.85e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31274,34503,41124 1qbiA 454 3.87e+01 1c9uA b.68.2.1 27619 1binA 143 3.90e+01 2gdm a.1.1.2 15231 1boeA 47 3.92e+01 1boeA g.3.9.1 44187 1g55A 343 3.93e+01 1g55A c.66.1.26 34247 1ryoA 327 3.94e+01 c.94.1.2 98108 1f06A 320 3.95e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1x82A 190 3.96e+01 1dtgA 334 3.97e+01 1nnt c.94.1.2 35896 1qxrA 189 3.99e+01 b.82.1.7 96552 1jqfA 334 4.01e+01 c.94.1.2 67086 1gppA 237 4.10e+01 b.86.1.2 76262 1i7xB 151 4.13e+01 1i7xB j.71.1.1 61914 3sil 379 4.13e+01 3sil b.68.1.1 27542 1sxvA 172 4.20e+01 2atvA 196 4.24e+01 1dapA 320 4.24e+01 1dapA c.2.1.3,d.81.1.3 30053,39968 2bhgA 209 4.25e+01 2udpA 338 4.29e+01 1xel c.2.1.2 29791 1fadA 99 4.32e+01 1fadA a.77.1.2 18428 1rliA 184 4.36e+01 c.23.5.6 97647 3proC 166 4.37e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1ac0 108 4.39e+01 1kum b.3.1.1 22526 1tu1A 148 4.47e+01 d.107.1.3 107316 1q9jA 422 4.53e+01 c.43.1.2,c.43.1.2 104590,104591 1i19A 561 4.59e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 3proD 166 4.61e+01 3proC d.52.1.1,d.52.1.1 38814,38815 1ghtA 105 4.66e+01 2rslA c.53.1.1 60526 2czdA 208 4.72e+01 1a8e 329 4.75e+01 1cb6A c.94.1.2 35888 2cz2A 223 4.77e+01 1ly1A 181 4.78e+01 c.37.1.1 74334 1xtlA 175 4.85e+01 1c4kA 730 4.85e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31273,34502,41123 1a2q 275 4.85e+01 1gci c.41.1.1 32512 1bw0A 416 4.88e+01 1bw0A c.67.1.1 34385 1wr3A 36 4.94e+01 1pms 136 4.96e+01 1awe b.55.1.1 26966 2f7tA 227 4.98e+01 1vd5A 377 4.99e+01 a.102.1.7 108518 1ywnA 316 5.00e+01 1sbzA 197 5.01e+01 2fimA 276 5.04e+01 1a9z 338 5.04e+01 1xel c.2.1.2 29795 1dbhA 354 5.16e+01 1awe a.87.1.1,b.55.1.1 18514,26967 2f1lA 187 5.22e+01 1qorA 327 5.24e+01 1qorA b.35.1.2,c.2.1.1 24766,29782 1d3kA 329 5.27e+01 1nnt c.94.1.2 35889 1w85A 368 5.27e+01 1gcpA 70 5.33e+01 1gcpA b.34.2.1 60430 1jxpA 186 5.35e+01 1jxpA b.47.1.3 26402 1qrjB 199 5.41e+01 1qrjB a.28.3.1 16952 1b3eA 330 5.43e+01 1nnt c.94.1.2 35897 2d4rA 147 5.62e+01 3dapA 320 5.62e+01 1dapA c.2.1.3,d.81.1.3 30051,39966 1ntcA 91 5.63e+01 1ntcA a.4.1.12 19004 2sil 381 5.71e+01 3sil b.68.1.1 27543 1ddsA 159 5.77e+01 1vdrA c.71.1.1 34858 1r8oB 71 5.77e+01 1a4iA 301 5.84e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 1rq2A 382 5.85e+01 c.32.1.1,d.79.2.1 105048,105049 1rm4A 337 5.86e+01 c.2.1.3,d.81.1.1 105000,105001 1zj8A 566 5.95e+01 1aym3 238 6.00e+01 1aym3 1ermA 263 6.01e+01 1btl e.3.1.1 42690 1f5mA 180 6.10e+01 1f5mB d.110.2.1 40895 1diaA 306 6.18e+01 1a4iA c.2.1.7,c.58.1.2 30280,33928 1gdtA 183 6.20e+01 2rslA a.4.1.2,c.53.1.1 16021,33348 1g2qA 187 6.21e+01 c.61.1.1 65117 1xtmA 175 6.21e+01 1dm9A 133 6.25e+01 1dm9A d.66.1.3 39560 1aotF 106 6.36e+01 1lckA d.93.1.1 40458 1dim 381 6.53e+01 3sil b.68.1.1 27544 1a4iB 301 6.53e+01 1a4iA c.2.1.7,c.58.1.2 30279,33927 1g0hA 252 6.55e+01 1dk4A e.7.1.1 60171 1dk4A 252 6.60e+01 1dk4A e.7.1.1 42970 1rwiA 270 6.68e+01 b.68.9.1 97987 1zyeA 220 6.76e+01 1cruA 454 6.77e+01 1c9uA b.68.2.1 27617 2bkqA 212 6.83e+01 1s4iA 175 6.85e+01 1y5eA 169 6.89e+01 1a05A 358 6.91e+01 1cnzA c.77.1.1 35059 1ze3D 125 6.92e+01 1vl2A 421 6.99e+01 c.26.2.1,d.210.1.1 108708,108709 1zndA 174 7.04e+01 1ulrA 88 7.06e+01 1a80 277 7.13e+01 1frb c.1.7.1 28700 3nodB 423 7.22e+01 1nseA d.174.1.1 42513 1k0eA 453 7.26e+01 d.161.1.1 67938 1ibvB 229 7.29e+01 1vpqA 273 7.29e+01 1vm6A 228 7.33e+01 c.2.1.3,d.81.1.3 108876,108877 1fmb 104 7.33e+01 1fmb b.50.1.1 26777 1wddS 128 7.44e+01 1m2tB 263 7.46e+01 b.42.2.1,b.42.2.1 84762,84763 1wloA 136 7.46e+01 2b18A 164 7.57e+01 1o59A 355 7.63e+01 b.18.1.22,b.18.1.22 92495,92496 4dfrA 159 7.67e+01 1vdrA c.71.1.1 34822 1g6oA 330 7.72e+01 1g6oA c.37.1.11 32430 1w0pA 781 7.74e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1za7A 165 7.74e+01 2blkA 122 7.78e+01 1qy1A 174 7.80e+01 b.60.1.1 96568 1v3vA 333 7.94e+01 b.35.1.2,c.2.1.1 108345,108346 1sup 275 8.15e+01 1gci c.41.1.1 32510 1to4A 156 8.28e+01 b.1.8.1 107162 1eo9B 241 8.33e+01 3pchM b.3.6.1 22826 1miwA 404 8.37e+01 a.173.1.1,d.218.1.4 79162,79163 1fqgA 263 8.64e+01 1btl e.3.1.1 42699 1po5A 476 8.71e+01 a.104.1.1 94963 1fjgB 256 8.77e+01 1fjfB c.23.15.1 31400 2bh8A 101 8.78e+01 2b6eA 146 8.82e+01 1lw6E 281 8.82e+01 c.41.1.1 74293 1fslA 143 8.83e+01 2gdm a.1.1.2 15229 1gci 269 8.84e+01 1gci c.41.1.1 32503 1xhbA 472 8.92e+01 1tuaA 191 8.93e+01 d.51.1.1,d.51.1.1 107321,107322 1gdvA 85 8.97e+01 1ctj a.3.1.1 60458 1vp4A 425 8.98e+01 1nqeA 594 8.99e+01 f.4.3.3 86027